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Old 04-01-2016, 05:51 AM   #2
simonandrews
Simon Andrews
 
Location: Babraham Inst, Cambridge, UK

Join Date: May 2009
Posts: 871
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If it's any consolation we gave up trying to understand all of the fastq-dump errors we saw and we now have a loop in our pipeline which simply tries the command again (up to 5 times) before deciding that there really is an error. a scary number of fastq-dump errors are not reproducible :-(
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